arXiv subjects

Wentao Li

Publications and source records attributed to Wentao Li.

66 records · Page 4Linked to original sources

arXiv2022

Approximate confidence distribution computing

Approximate confidence distribution computing (ACDC) offers a new take on the rapidly developing field of likelihood-free inference from within a frequentist framework. The appeal of this computational method for statistical inference hinges upon the concept of a confidence distribution, a special type of estimator which is defined with respect to the repeated sampling principle. An ACDC method provides frequentist validation for computational inference in problems with unknown or intractable likelihoods. The main theoretical contribution of this work is the identification of a matching condition necessary for frequentist validity of inference from this method. In addition to providing an example of how a modern understanding of confidence distribution theory can be used to connect Bayesian and frequentist inferential paradigms, we present a case to expand the current scope of so-called approximate Bayesian inference to include non-Bayesian inference by targeting a confidence distribution rather than a posterior. The main practical contribution of this work is the development of a data-driven approach to drive ACDC in both Bayesian or frequentist contexts. The ACDC algorithm is data-driven by the selection of a data-dependent proposal function, the structure of which is quite general and adaptable to many settings. We explore two numerical examples that both verify the theoretical arguments in the development of ACDC and suggest instances in which ACDC outperform approximate Bayesian computing methods computationally.

stat.ME↗

arXiv2022

Federated Generalized Linear Mixed Models for Collaborative Genome-wide Association Studies

As the sequencing costs are decreasing, there is great incentive to perform large scale association studies to increase power of detecting new variants. Federated association testing among different institutions is a viable solution for increasing sample sizes by sharing the intermediate testing statistics that are aggregated by a central server. There are, however, standing challenges to performing federated association testing. Association tests are known to be confounded by numerous factors such as population stratification, which can be especially important in multiancestral studies and in admixed populations among different sites. Furthermore, disease etiology should be considered via flexible models to avoid biases in the significance of the genetic effect. A rising challenge for performing large scale association studies is the privacy of participants and related ethical concerns of stigmatization and marginalization. Here, we present dMEGA, a flexible and efficient method for performing federated generalized linear mixed model based association testing among multiple sites while underlying genotype and phenotype data are not explicitly shared. dMEGA first utilizes a reference projection to estimate population-based covariates without sharing genotype dataset among sites. Next, dMEGA uses Laplacian approximation for the parameter likelihoods and decomposes parameter estimation into efficient local-gradient updates among sites. We use simulated and real datasets to demonstrate the accuracy and efficiency of dMEGA. Overall, dMEGA's formulation is flexible to integrate fixed and random effects in a federated setting.

stat.ME↗

arXiv2022

Federated Learning Algorithms for Generalized Mixed-effects Model (GLMM) on Horizontally Partitioned Data from Distributed Sources

Objectives: This paper develops two algorithms to achieve federated generalized linear mixed effect models (GLMM), and compares the developed model's outcomes with each other, as well as that from the standard R package (`lme4'). Methods: The log-likelihood function of GLMM is approximated by two numerical methods (Laplace approximation and Gaussian Hermite approximation), which supports federated decomposition of GLMM to bring computation to data. Results: Our developed method can handle GLMM to accommodate hierarchical data with multiple non-independent levels of observations in a federated setting. The experiment results demonstrate comparable (Laplace) and superior (Gaussian-Hermite) performances with simulated and real-world data. Conclusion: We developed and compared federated GLMMs with different approximations, which can support researchers in analyzing biomedical data to accommodate mixed effects and address non-independence due to hierarchical structures (i.e., institutes, region, country, etc.).

stat.ML↗

arXiv2022

Facilitating Federated Genomic Data Analysis by Identifying Record Correlations while Ensuring Privacy

With the reduction of sequencing costs and the pervasiveness of computing devices, genomic data collection is continually growing. However, data collection is highly fragmented and the data is still siloed across different repositories. Analyzing all of this data would be transformative for genomics research. However, the data is sensitive, and therefore cannot be easily centralized. Furthermore, there may be correlations in the data, which if not detected, can impact the analysis. In this paper, we take the first step towards identifying correlated records across multiple data repositories in a privacy-preserving manner. The proposed framework, based on random shuffling, synthetic record generation, and local differential privacy, allows a trade-off of accuracy and computational efficiency. An extensive evaluation on real genomic data from the OpenSNP dataset shows that the proposed solution is efficient and effective.

cs.CR↗

arXiv2022

An Effective Iterated Two-stage Heuristic Algorithm for the Multiple Traveling Salesmen Problem

The multiple Traveling Salesmen Problem (mTSP) is a general extension of the famous NP-hard Traveling Salesmen Problem (TSP), that there are m (m > 1) salesmen to visit the cities. In this paper, we address the mTSP with both the minsum objective and minmax objective, which aims at minimizing the total length of the $m$ tours and the length of the longest tour among all the m tours, respectively. We propose an iterated two-stage heuristic algorithm called ITSHA for the mTSP. Each iteration of ITSHA consists of an initialization stage and an improvement stage. The initialization stage aims to generate high-quality and diverse initial solutions. The improvement stage mainly applies the variable neighborhood search (VNS) approach based on our proposed effective local search neighborhoods to optimize the initial solution. Moreover, some local optima escaping approaches are employed to enhance the search ability of the algorithm. Extensive experimental results on a wide range of public benchmark instances show that ITSHA significantly outperforms the state-of-the-art heuristic algorithms in solving the mTSP on both the objectives.

cs.AI↗

arXiv2019

Synthesis and Inpainting-Based MR-CT Registration for Image-Guided Thermal Ablation of Liver Tumors

Thermal ablation is a minimally invasive procedure for treat-ing small or unresectable tumors. Although CT is widely used for guiding ablation procedures, the contrast of tumors against surrounding normal tissues in CT images is often poor, aggravating the difficulty in accurate thermal ablation. In this paper, we propose a fast MR-CT image registration method to overlay a pre-procedural MR (pMR) image onto an intra-procedural CT (iCT) image for guiding the thermal ablation of liver tumors. By first using a Cycle-GAN model with mutual information constraint to generate synthesized CT (sCT) image from the cor-responding pMR, pre-procedural MR-CT image registration is carried out through traditional mono-modality CT-CT image registration. At the intra-procedural stage, a partial-convolution-based network is first used to inpaint the probe and its artifacts in the iCT image. Then, an unsupervised registration network is used to efficiently align the pre-procedural CT (pCT) with the inpainted iCT (inpCT) image. The final transformation from pMR to iCT is obtained by combining the two estimated transformations,i.e., (1) from the pMR image space to the pCT image space (through sCT) and (2) from the pCT image space to the iCT image space (through inpCT). Experimental results confirm that the proposed method achieves high registration accuracy with a very fast computational speed.

eess.IV↗

arXiv2018

An effective likelihood-free approximate computing method with statistical inferential guarantees

Approximate Bayesian computing is a powerful likelihood-free method that has grown increasingly popular since early applications in population genetics. However, complications arise in the theoretical justification for Bayesian inference conducted from this method with a non-sufficient summary statistic. In this paper, we seek to re-frame approximate Bayesian computing within a frequentist context and justify its performance by standards set on the frequency coverage rate. In doing so, we develop a new computational technique called approximate confidence distribution computing, yielding theoretical support for the use of non-sufficient summary statistics in likelihood-free methods. Furthermore, we demonstrate that approximate confidence distribution computing extends the scope of approximate Bayesian computing to include data-dependent priors without damaging the inferential integrity. This data-dependent prior can be viewed as an initial `distribution estimate' of the target parameter which is updated with the results of the approximate confidence distribution computing method. A general strategy for constructing an appropriate data-dependent prior is also discussed and is shown to often increase the computing speed while maintaining statistical inferential guarantees. We supplement the theory with simulation studies illustrating the benefits of the proposed method, namely the potential for broader applications and the increased computing speed compared to the standard approximate Bayesian computing methods.

stat.CO↗

arXiv2017

On the Asymptotic Efficiency of Approximate Bayesian Computation Estimators

Many statistical applications involve models for which it is difficult to evaluate the likelihood, but from which it is relatively easy to sample. Approximate Bayesian computation is a likelihood-free method for implementing Bayesian inference in such cases. We present results on the asymptotic variance of estimators obtained using approximate Bayesian computation in a large-data limit. Our key assumption is that the data are summarized by a fixed-dimensional summary statistic that obeys a central limit theorem. We prove asymptotic normality of the mean of the approximate Bayesian computation posterior. This result also shows that, in terms of asymptotic variance, we should use a summary statistic that is the same dimension as the parameter vector, p; and that any summary statistic of higher dimension can be reduced, through a linear transformation, to dimension p in a way that can only reduce the asymptotic variance of the posterior mean. We look at how the Monte Carlo error of an importance sampling algorithm that samples from the approximate Bayesian computation posterior affects the accuracy of estimators. We give conditions on the importance sampling proposal distribution such that the variance of the estimator will be the same order as that of the maximum likelihood estimator based on the summary statistics used. This suggests an iterative importance sampling algorithm, which we evaluate empirically on a stochastic volatility model.

stat.ME↗

arXiv2017

Convergence of Regression Adjusted Approximate Bayesian Computation

We present asymptotic results for the regression-adjusted version of approximate Bayesian computation introduced by Beaumont(2002). We show that for an appropriate choice of the bandwidth, regression adjustment will lead to a posterior that, asymptotically, correctly quantifies uncertainty. Furthermore, for such a choice of bandwidth we can implement an importance sampling algorithm to sample from the posterior whose acceptance probability tends to unity as the data sample size increases. This compares favourably to results for standard approximate Bayesian computation, where the only way to obtain a posterior that correctly quantifies uncertainty is to choose a much smaller bandwidth; one for which the acceptance probability tends to zero and hence for which Monte Carlo error will dominate.

math.ST↗

arXiv2017

Enhanced betatron radiation by steering a low-energy-spread electron beam in a deflected laser-driven plasma wiggler

Laser wakefield accelerators (LWFA) hold great potential to produce high-quality high-energy electron beams (e beams) and simultaneously bright x-ray sources via betatron radiation, which are very promising for pump-probe study in ultrafast science. However, in order to obtain a high-quality e beam, electron injection and acceleration should be carefully manipulated, where a large oscillation amplitude has to be avoided and thus the emitted x-ray yield is limited. Here, we report a new scheme to experimentally enhance betatron radiation significantly both in photon yield and photon energy by separating electron injection and acceleration from manipulation of the e-beam transverse oscillation in the wake via introducing a slanted thin plasma refraction slab. Particle-in-cell simulations indicate that the e-beam transverse oscillation amplitude can be increased by more than 10 folds, after being steered into the deflected laser-driven wakefield due to refraction at the slab's boundaries. Spectral broadening of the x-rays can be suppressed owing to the small variation in the peak energy of the low-energy-spread e beam in a plasma wiggler regime. We demonstrate that the high-quality e-beam generation, refracting and wiggling can act as a whole to realize the concurrence of monoenergetic e beam and bright x-rays in a compact LWFA.

physics.plasm-ph↗

arXiv2015

Dissociation products and structures of solid H2S at strong compression

Hydrogen sulfides have recently received a great deal of interest due to the record high superconducting temperatures of up to 203 K observed on strong compression of dihydrogen sulfide (H2S). A joint theoretical and experimental study is presented in which decomposition products and structures of compressed H2S are characterized, and their superconducting properties are calculated. In addition to the experimentally known H2S and H3S phases, our first-principles structure searches have identified several energetically competitive stoichiometries that have not been reported previously; H2S3, H3S2, and H4S3. In particular, H4S3 is predicted to be thermodynamically stable within a large pressure range of 25-113 GPa. High-pressure room-temperature X-ray diffraction measurements confirm the presence of H3S and H4S3 through decomposition of H2S that emerge at 27 GPa and coexist with residual H2S, at least up to the highest pressure studied in our experiments of 140 GPa. Electron-phonon coupling calculations show that H4S3 has a small Tc of below 2 K, and that H2S is mainly responsible for the observed superconductivity of samples prepared at low temperature (<100K).

cond-mat.supr-con↗

arXiv2004

Interfacial Slip in Sheared Polymer Blends

We have developed a dynamic self-consistent field theory, without any adjustable parameters, for unentangled polymer blends under shear. Our model accounts for the interaction between polymers, and enables one to compute the evolution of the local rheology, microstructure and the conformations of the polymer chains under shear self-consistently. We use this model to study the interfacial dynamics in sheared polymer blends and make a quantitative comparison between this model and Molecular Dynamics simulations. We find good agreement between the two methods.

cond-mat.soft↗